TY - JOUR
T1 - A comparative study of multivariate and univariate hidden Markov modelings in time-binned single-molecule FRET data analysis
AU - Liu, Yang
AU - Park, Jeehae
AU - Dahmen, Karin A.
AU - Chemla, Yann R.
AU - Ha, Taekjip
PY - 2010/4/29
Y1 - 2010/4/29
N2 - We compare two different types of hidden Markov modeling (HMM) algorithms, e.g., multivariate HMM (MHMM) and univariate HMM (UHMM), for the analysis of time-binned single-molecule fluorescence energy transfer (smFRET) data. In MHMM, the original two channel signals, i.e., the donor fluorescence intensity (ID) and acceptor fluorescence intensity (IA), are simultaneously analyzed. However, in UHMM, only the calculated FRET trajectory is analyzed. On the basis of the analysis of both synthetic and experimental data, we find that, if the noise in the signal is described with a proper probability distribution, MHMM generally outperforms UHMM. We also show that, in the case of multiple trajectories, analyzing them simultaneously gives better results than averaging over individual analysis results.
AB - We compare two different types of hidden Markov modeling (HMM) algorithms, e.g., multivariate HMM (MHMM) and univariate HMM (UHMM), for the analysis of time-binned single-molecule fluorescence energy transfer (smFRET) data. In MHMM, the original two channel signals, i.e., the donor fluorescence intensity (ID) and acceptor fluorescence intensity (IA), are simultaneously analyzed. However, in UHMM, only the calculated FRET trajectory is analyzed. On the basis of the analysis of both synthetic and experimental data, we find that, if the noise in the signal is described with a proper probability distribution, MHMM generally outperforms UHMM. We also show that, in the case of multiple trajectories, analyzing them simultaneously gives better results than averaging over individual analysis results.
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U2 - 10.1021/jp9057669
DO - 10.1021/jp9057669
M3 - Article
C2 - 20361785
AN - SCOPUS:77951562094
VL - 114
SP - 5386
EP - 5403
JO - Journal of Physical Chemistry B
JF - Journal of Physical Chemistry B
SN - 1520-6106
IS - 16
ER -